Locus 5270

Sequence ID	2L_DroMel_CAF1
Location	14,865,457 – 14,865,612
Length	155
Max. P	0.875169

overview

Window 6

Location	14,865,457 – 14,865,559
Length	102
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	75.57
Mean single sequence MFE	-34.22
Consensus MFE	-19.67
Energy contribution	-20.45
Covariance contribution	0.78
Combinations/Pair	1.12
Mean z-score	-1.82
Structure conservation index	0.57
SVM decision value	0.89
SVM RNA-class probability	0.875169
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14865457 102 - 22407834
AGUGCAGCCAUAAAUACGUUAACGUUCGAUGUGUUAGGCGA-----UGCCAGCUGCAACUACAGAGC---------CCUGCUAAGUGGCUGCACUUUAGCAGUUCCCACAGGGUCC--
((((((((....((((((((.......)))))))).(((..-----.))).))))).))).....((---------((((....(..(((((......)))))..)..))))))..-- ( -34.90)
>DroPse_CAF1 60876 104 - 1
AGUGCAGCCAUAAAUACGUUAACGUUCGAUAUUUUU-GCGAGCGUUUGCCAGCUGCAGCUGUAGAGAAUCCCCGAACGGGCUAAGUGGCUGC-----------UGCCACACCCACC--
...((((((((......((.((((((((.((....)-))))))))).))((((....)))).........(((....)))....))))))))-----------.............-- ( -33.30)
>DroSec_CAF1 25322 102 - 1
AGUGCAGCCAUAAAUACGUUAACGUUCGAUGUGUUAGGCGA-----UGCCAGCUGCAACUACGGAAC---------CCUGCUAAGUGGCUGCACUUUAGCAGUUCCCACAGGGUCC--
((((((((....((((((((.......)))))))).(((..-----.))).))))).)))..(((.(---------((((....(..(((((......)))))..)..))))))))-- ( -36.90)
>DroYak_CAF1 24448 102 - 1
AGUGCAGCCAUAAAUACGUUAACGUUCGAUGUGUUAGGCGA-----UGCCAGCUGCAACUACAGAGC---------CCUGCUAAGUGGCUGCACUUUAGCAGUUCCCACAGGGUCC--
((((((((....((((((((.......)))))))).(((..-----.))).))))).))).....((---------((((....(..(((((......)))))..)..))))))..-- ( -34.90)
>DroAna_CAF1 22884 100 - 1
AGUGCAGCCAUAAAUACGUUAACAUUCGA----UUAGGCGA-----UGCCAGCUGCAACUAAGGAGC---------CCUGCUAAGUGGCUGCACUCUAACAGCAUCCGAAGGGGGCGA
(((((((((((..................----...(((..-----.))).(((.(......).)))---------........)))))))))))......((.(((....))))).. ( -33.10)
>DroPer_CAF1 49286 104 - 1
AGUGCAGCCAUAAAUACGUUAACGUUCGAUAUUUUU-GCGAGCGUUUGCCAGCUGCAGCUGUAGAGAAUUUCCGAACGGGCUAAGUGGCUGC-----------UGCCACACCCACC--
.(((.((((........((.((((((((.((....)-))))))))).))((((....)))).................))))..(((((...-----------.)))))...))).-- ( -32.20)
>consensus
AGUGCAGCCAUAAAUACGUUAACGUUCGAUGUGUUAGGCGA_____UGCCAGCUGCAACUACAGAGC_________CCUGCUAAGUGGCUGCACUUUAGCAGUUCCCACAGGGUCC__
.((((((((((.........................((((......))))..(((......)))....................))))))))))........................ (-19.67 = -20.45 +   0.78)

alignment

secondary structure

dotplot

Window 7

Location	14,865,521 – 14,865,612
Length	91
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	92.58
Mean single sequence MFE	-26.09
Consensus MFE	-23.01
Energy contribution	-23.40
Covariance contribution	0.39
Combinations/Pair	1.09
Mean z-score	-1.31
Structure conservation index	0.88
SVM decision value	0.12
SVM RNA-class probability	0.594985
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14865521 91 + 22407834
CCUAACACAUCGAACGUUAACGUAUUUAUGGCUGCACUCAGCCUGACAUCCACCA-ACUGCAUUGGCAUACAAAGUGGGUGG---------CGAUGGCAGU
.......(((((.(((....)))......(((((....)))))...(((((((..-..(((....)))......))))))).---------)))))..... ( -26.00)
>DroSec_CAF1 25386 91 + 1
CCUAACACAUCGAACGUUAACGUAUUUAUGGCUGCACUCAGCCUGACAUCCACCA-ACUGCAUUGGCAUACAAAGUGGGUGG---------CGAUGGCAGU
.......(((((.(((....)))......(((((....)))))...(((((((..-..(((....)))......))))))).---------)))))..... ( -26.00)
>DroSim_CAF1 24905 91 + 1
CCUAACACAUCGAACGUUAACGUAUUUAUGGCUGCACUCAGCCUGACAUCCACCA-ACUGCAUUGGCAUACAAAGUGGGUGG---------CGAUGGCAGU
.......(((((.(((....)))......(((((....)))))...(((((((..-..(((....)))......))))))).---------)))))..... ( -26.00)
>DroEre_CAF1 24747 92 + 1
CCUAACACAUCGAACGUUAACGUAUUUAUGGCUGCACUCAGCCUGACAUCCACCAAACUGCAUUGGCAUACAAAGUGGGUGG---------CGAUGGCAGU
.......(((((.(((....)))......(((((....)))))...(((((((.....(((....)))......))))))).---------)))))..... ( -26.40)
>DroYak_CAF1 24512 91 + 1
CCUAACACAUCGAACGUUAACGUAUUUAUGGCUGCACUCAGCCUGACAUCCACCA-ACUGCAUUGGCAUACAAAGUGGGUGG---------CGAUGGCAGU
.......(((((.(((....)))......(((((....)))))...(((((((..-..(((....)))......))))))).---------)))))..... ( -26.00)
>DroAna_CAF1 22950 96 + 1
CCUAA----UCGAAUGUUAACGUAUUUAUGGCUGCACUCAGCCUGACAGCUACCA-ACUGCAAUGCCACAAAAAGUGGGUGGGCUGUGUGACGAUGGCAGU
.....----.....(((((.(((......(((((....)))))..(((((((((.-(((..............))).))).))))))...))).))))).. ( -26.14)
>consensus
CCUAACACAUCGAACGUUAACGUAUUUAUGGCUGCACUCAGCCUGACAUCCACCA_ACUGCAUUGGCAUACAAAGUGGGUGG_________CGAUGGCAGU
.......(((((.(((....)))......(((((....)))))...(((((((.....(((....)))......)))))))..........)))))..... (-23.01 = -23.40 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:13 2006